Hi Jason,
thanks for calling my attention to this--this is very good to know (I
looked up the camera/model space idea as well--very helpful)!
Jacob
On Mon, Jan 2, 2012 at 9:38 PM, Jason Vertrees
<jason.vertr...@schrodinger.com> wrote:
> Jacob,
>
> The easiest will be to use matrix_copy. All objects start out with
> their object matrix set to the identity. One you drag them around or
> move them through an alignment, their matrices change. You can then
> easily copy one object's matrix onto another object.
>
> Cheers,
>
> -- Jason
>
> On Thu, Dec 29, 2011 at 3:32 PM, Thomas Holder
> <spel...@users.sourceforge.net> wrote:
>> Hi Jacob,
>>
>> regarding "alignto" and states' iter-relations, this has recently been
>> fixed in open-source pymol.
>>
>> "align" and "super" both take arguments "mobile_state" and
>> "target_state" and also preserve states' iter-relations.
>>
>> Example:
>> align 1d7q, 2oqk, mobile_state=7, target_state=1
>>
>> The matrix you get like this:
>> print cmd.get_object_matrix('1d7q')
>>
>> You can use this matrix with "transform_selection".
>>
>> There is also "matrix_copy" command, but I haven't tried it with
>> multi-state stuff.
>>
>> http://pymolwiki.org/index.php/Align
>> http://pymolwiki.org/index.php/Get_object_matrix
>> http://pymolwiki.org/index.php/Transform_selection
>> http://pymolwiki.org/index.php/Matrix_Copy
>>
>> Cheers,
>> Thomas
>>
>> Jacob Keller wrote, On 12/29/11 18:33:
>>> Dear List,
>>>
>>> I want to superpose a series of 30 states on another (single-state)
>>> model in the following way:
>>>
>>> --Superpose the best (closest-fitting) state first. (I know which one this
>>> is)
>>> --Output that transformation matrix
>>> --Transform other states by same matrix to preserve states' inter-relation.
>>>
>>> Is there some function that will output such a matrix, for input into,
>>> say, "transform_selection"?
>>>
>>> I have done this using the alignto command, but it ruins the states'
>>> interelations.
>>>
>>> Jacob
>>
>> --
>> Thomas Holder
>> MPI for Developmental Biology
>> Spemannstr. 35
>> D-72076 Tübingen
>>
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>
>
>
> --
> Jason Vertrees, PhD
> PyMOL Product Manager
> Schrodinger, LLC
>
> (e) jason.vertr...@schrodinger.com
> (o) +1 (603) 374-7120
--
*******************************************
Jacob Pearson Keller
Northwestern University
Medical Scientist Training Program
email: j-kell...@northwestern.edu
*******************************************
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